Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102499
Name   oriT_pCRKP-12_Other in_silico
Organism   Klebsiella pneumoniae strain CRKP-12
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JANPXN010000004 (43974..44062 [-], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_pCRKP-12_Other
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1856 GenBank   WP_001405892
Name   nikB_NVV51_RS28625_pCRKP-12_Other insolico UniProt ID   A0A3V4WX06
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103883.32 Da        Isoelectric Point: 7.3373

>WP_001405892.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A3V4WX06


Auxiliary protein

ID   768 GenBank   WP_001283947
Name   WP_001283947_pCRKP-12_Other insolico UniProt ID   A0A142CMC2
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12613.57 Da        Isoelectric Point: 10.7463

>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A142CMC2


T4CP

ID   1451 GenBank   WP_001289276
Name   trbC_NVV51_RS28630_pCRKP-12_Other insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 86941.11 Da        Isoelectric Point: 6.7713

>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 49440..89236

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NVV51_RS28630 (NVV51_28630) 47156..49447 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
NVV51_RS28635 (NVV51_28635) 49440..50510 - 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
NVV51_RS28640 (NVV51_28640) 50529..51737 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
NVV51_RS28645 (NVV51_28645) 52044..52823 - 780 WP_275450201 protein FinQ -
NVV51_RS28650 (NVV51_28650) 53450..53602 + 153 WP_001303307 Hok/Gef family protein -
NVV51_RS28655 (NVV51_28655) 53674..53925 - 252 WP_001291968 hypothetical protein -
NVV51_RS28660 (NVV51_28660) 54849..55025 - 177 WP_001054900 hypothetical protein -
NVV51_RS28665 (NVV51_28665) 55234..55443 - 210 WP_001140545 hemolysin expression modulator Hha -
NVV51_RS28670 (NVV51_28670) 55541..56155 - 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
NVV51_RS28675 (NVV51_28675) 56231..58399 - 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
NVV51_RS28680 (NVV51_28680) 58496..59080 - 585 WP_001579774 IncI1-type conjugal transfer protein TraX -
NVV51_RS28685 (NVV51_28685) 59109..60311 - 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
NVV51_RS28690 (NVV51_28690) 60278..60892 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
NVV51_RS28695 (NVV51_28695) 60892..63936 - 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
NVV51_RS28700 (NVV51_28700) 64026..64826 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NVV51_RS28705 (NVV51_28705) 64810..64998 - 189 WP_001277255 putative conjugal transfer protein TraS -
NVV51_RS28710 (NVV51_28710) 65062..65466 - 405 WP_001579770 DUF6750 family protein traR
NVV51_RS28715 (NVV51_28715) 65517..66044 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NVV51_RS28720 (NVV51_28720) 66044..66748 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
NVV51_RS28725 (NVV51_28725) 66748..68037 - 1290 WP_001271997 conjugal transfer protein TraO traO
NVV51_RS28730 (NVV51_28730) 68040..69023 - 984 WP_001579769 IncI1-type conjugal transfer protein TraN traN
NVV51_RS28735 (NVV51_28735) 69034..69726 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
NVV51_RS28740 (NVV51_28740) 69723..70070 - 348 WP_001055900 conjugal transfer protein traL
NVV51_RS28745 (NVV51_28745) 70088..73855 - 3768 WP_001579768 LPD7 domain-containing protein -
NVV51_RS28750 (NVV51_28750) 73945..74496 - 552 WP_000014584 phospholipase D family protein -
NVV51_RS28755 (NVV51_28755) 74511..74801 - 291 WP_001372180 hypothetical protein traK
NVV51_RS28760 (NVV51_28760) 74798..75946 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NVV51_RS28765 (NVV51_28765) 75943..76761 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
NVV51_RS28770 (NVV51_28770) 76758..77216 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NVV51_RS28775 (NVV51_28775) 77611..78195 - 585 WP_001579766 histidine phosphatase family protein -
NVV51_RS28780 (NVV51_28780) 78255..79457 - 1203 WP_000976353 conjugal transfer protein TraF -
NVV51_RS28785 (NVV51_28785) 79543..80367 - 825 WP_001238929 conjugal transfer protein TraE traE
NVV51_RS28790 (NVV51_28790) 80518..81672 - 1155 WP_001139958 site-specific integrase -
NVV51_RS28795 (NVV51_28795) 83438..84730 - 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NVV51_RS28800 (NVV51_28800) 84730..85386 - 657 WP_001193553 prepilin peptidase -
NVV51_RS28805 (NVV51_28805) 85371..85931 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
NVV51_RS28810 (NVV51_28810) 85941..86555 - 615 WP_094819134 type 4 pilus major pilin -
NVV51_RS28815 (NVV51_28815) 86573..87670 - 1098 WP_001208805 type II secretion system F family protein -
NVV51_RS28820 (NVV51_28820) 87683..89236 - 1554 WP_001579763 ATPase, T2SS/T4P/T4SS family virB11
NVV51_RS28825 (NVV51_28825) 89247..89699 - 453 WP_001247334 type IV pilus biogenesis protein PilP -
NVV51_RS28830 (NVV51_28830) 89686..90981 - 1296 WP_000752772 type 4b pilus protein PilO2 -
NVV51_RS28835 (NVV51_28835) 90974..92656 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NVV51_RS28840 (NVV51_28840) 92670..93107 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
NVV51_RS28845 (NVV51_28845) 93107..94174 - 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   2943 GenBank   NZ_JANPXN010000004
Plasmid name   pCRKP-12_Other Incompatibility group   IncI1
Plasmid size   99717 bp Coordinate of oriT [Strand]   43974..44062 [-]
Host baterium   Klebsiella pneumoniae strain CRKP-12

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2